design bioinformatics and computational biology of proteins proteomics ...
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Protein dynamics from X-ray and NMR [Biophysics and Computational Biology]
Protein dynamics from X-ray and NMR
Fenwick, R. B., van den Bedem, H., Fraser, J. S., Wright, P. E....
Date: 2014-01-28
Detailed descriptions of atomic coordinates and motions are required for an understanding of protein dynamics and their relation to molecular recognition, catalytic function, and allostery. Historically, NMR relaxation measurements have played a dominant role in the determination of the amplitudes and timescales (picosecond–nanosecond) of bond vector fluctuations, whereas high-resolution X-ray... Read More
PNAS:
Number: 4
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01-29-2014 12:50 AM
NMR-guided metadynamics of proteins [Biophysics and Computational Biology]
NMR-guided metadynamics of proteins
Granata, D., Camilloni, C., Vendruscolo, M., Laio, A....
Date: 2013-04-23
The use of free-energy landscapes rationalizes a wide range of aspects of protein behavior by providing a clear illustration of the different states accessible to these molecules, as well as of their populations and pathways of interconversion. The determination of the free-energy landscapes of proteins by computational methods is, however,... Read More
PNAS:
Number: 17
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04-23-2013 08:37 PM
NMR and functional study of eIF4E3 [Biophysics and Computational Biology]
NMR and functional study of eIF4E3
Osborne, M. J., Volpon, L., Kornblatt, J. A., Culjkovic-Kraljacic, B., Baguet, A., Borden, K. L. B....
Date: 2013-03-05
Recognition of the methyl-7-guanosine (m7G) cap structure on mRNA is an essential feature of mRNA metabolism and thus gene expression. Eukaryotic translation initiation factor 4E (eIF4E) promotes translation, mRNA export, proliferation, and oncogenic transformation dependent on this cap-binding activity. eIF4E–cap recognition is mediated via complementary charge interactions of the positively... Read More
PNAS:
Number: 10
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03-06-2013 04:21 AM
Crystal and NMR structures of a Trp-cage [Biophysics and Computational Biology]
Crystal and NMR structures of a Trp-cage
Scian, M., Lin, J. C., Le Trong, I., Makhatadze, G. I., Stenkamp, R. E., Andersen, N. H....
Date: 2012-07-31
To provide high-resolution X-ray crystallographic structures of a peptide with the Trp-cage fold, we prepared a cyclized version of this motif. Cyclized Trp-cage is remarkably stable and afforded two crystal forms suitable for X-ray diffraction. The resulting higher resolution crystal structures validate the prior NMR models and provide explanations for experimental observations that could not be rationalized by NMR structural data,...
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07-31-2012 08:27 PM
[CNS Yahoo group] EMBO Practical Course on "Computational structural biology - from da
EMBO Practical Course on "Computational structural biology - from da
Hi all, From 14-18 November, an EMBO Practical Course on "Computational structural biology - from data to structure to function" will be held at the EBI in
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07-08-2011 07:01 PM
[NMR paper] Application of NMR in structural proteomics: screening for proteins amenable to struc
Application of NMR in structural proteomics: screening for proteins amenable to structural analysis.
Related Articles Application of NMR in structural proteomics: screening for proteins amenable to structural analysis.
Structure. 2002 Dec;10(12):1613-8
Authors: Rehm T, Huber R, Holak TA
In the time of structural proteomics when protein structures are targeted on a genome-wide scale, the detection of "well-behaved" proteins that would yield good quality NMR spectra or X-ray images is the key to high-throughput structure determination. Already,...
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11-24-2010 08:58 PM
NMR in Structural Biology - Alessandro Pintar, Protein Structure and Bioinformatics, ICGEB, Trieste
Nuclear Magnetic Resonance in Structural Biology - Alessandro Pintar, Protein Structure and Bioinformatics, ICGEB, Trieste
Thanks to advancements both in the theory and in the instrumentation, Nuclear Magnetic Resonance (NMR) has widened its use from small organic molecules to oligosaccharides, peptides, proteins, and nucleic acids. Together with X-ray crystallography, NMR is the only technique that can provide structural information at the atomic level. However, applications of NMR are not limited to 3D structure calculation: it can be used to study flexible biomolecules (peptides,...
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